DOI: 10.18129/B9.bioc.EBSeq  

This is the development version of EBSeq; for the stable release version, see EBSeq.

An R package for gene and isoform differential expression analysis of RNA-seq data

Bioconductor version: Development (3.19)

Differential Expression analysis at both gene and isoform level using RNA-seq data

Author: Xiuyu Ma [cre, aut], Ning Leng [aut], Christina Kendziorski [ctb], Michael A. Newton [ctb]

Maintainer: Xiuyu Ma <watsonforfun at gmail.com>

Citation (from within R, enter citation("EBSeq")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:



PDF R Script EBSeq Vignette
PDF   Reference Manual
Text   NEWS


biocViews DifferentialExpression, ImmunoOncology, MultipleComparison, RNASeq, Sequencing, Software, StatisticalMethod
Version 2.1.0
In Bioconductor since BioC 2.13 (R-3.0) (10 years)
License Artistic-2.0
Depends blockmodeling, gplots, testthat, R (>= 3.0.0)
Imports Rcpp (>= 0.12.11), RcppEigen (>=
LinkingTo Rcpp, RcppEigen, BH
SystemRequirements c++11
Depends On Me EBSeqHMM, Oscope
Imports Me DEsubs, scDD, scDDboost
Suggests Me compcodeR
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package EBSeq_2.1.0.tar.gz
Windows Binary EBSeq_2.1.0.zip (64-bit only)
macOS Binary (x86_64) EBSeq_2.1.0.tgz
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/EBSeq
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/EBSeq
Bioc Package Browser https://code.bioconductor.org/browse/EBSeq/
Package Short Url https://bioconductor.org/packages/EBSeq/
Package Downloads Report Download Stats

Documentation »


R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: